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pem.F90 @ 3666

Last change on this file since 3666 was 3666, checked in by jbclement, 4 months ago

PEM:

Adjusments of few scripts to handle more situations.
Bug correction related to deallocation in case of "soil_pem = .false." or "layering_algo = .true.".

JBC

File size: 67.7 KB

Line
1	!------------------------
2	! I Initialization
3	! I_a Read the "run.def"
4	! I_b Read the "start.nc" and "startfi.nc"
5	! I_c Subslope parametrisation
6	! I_d Read the PCM data and convert them to the physical grid
7	! I_e Initialization of the PEM variable and soil
8	! I_f Compute tendencies
9	! I_g Compute global surface pressure
10	! I_h Read the "startpem.nc"
11	! I_i Compute orbit criterion
12
13	! II Run
14	! II_a Update pressure, ice and tracers
15	! II_b Evolution of ice
16	! II_c Flow of glaciers
17	! II_d Update surface and soil temperatures
18	! II_e Outputs
19	! II_f Update the tendencies
20	! II_g Checking the stopping criterion
21
22	! III Output
23	! III_a Update surface value for the PCM start files
24	! III_b Write the "restart.nc" and "restartfi.nc"
25	! III_c Write the "restartpem.nc"
26	!------------------------
27
28	PROGRAM pem
29
30	use phyetat0_mod, only: phyetat0
31	use phyredem, only: physdem0, physdem1
32	use netcdf, only: nf90_open, NF90_NOWRITE, nf90_get_var, nf90_inq_varid, nf90_close
33	use turb_mod, only: q2, wstar
34	use comslope_mod, only: nslope, def_slope, def_slope_mean, subslope_dist, iflat, ini_comslope_h
35	use logic_mod, only: iflag_phys
36	use mod_const_mpi, only: COMM_LMDZ
37	use infotrac
38	use geometry_mod, only: latitude_deg
39	use conf_pem_mod, only: conf_pem
40	use pemredem, only: pemdem0, pemdem1
41	use glaciers_mod, only: flow_co2glaciers, flow_h2oglaciers, co2ice_flow, h2oice_flow, inf_h2oice_threshold, &
42	metam_h2oice_threshold, metam_co2ice_threshold, metam_h2oice, metam_co2ice, computeTcondCO2
43	use stopping_crit_mod, only: stopping_crit_h2o_ice, stopping_crit_co2
44	use constants_marspem_mod, only: alpha_clap_co2, beta_clap_co2, alpha_clap_h2o, beta_clap_h2o, m_co2, m_noco2
45	use evol_ice_mod, only: evol_co2_ice, evol_h2o_ice
46	use comsoil_h_PEM, only: soil_pem, ini_comsoil_h_PEM, end_comsoil_h_PEM, nsoilmx_PEM, &
47	TI_PEM, & ! Soil thermal inertia
48	tsoil_PEM, layer_PEM, & ! Soil temp, number of subsurface layers, soil mid layer depths
49	fluxgeo ! Geothermal flux for the PEM and PCM
50	use adsorption_mod, only: regolith_adsorption, adsorption_pem, & ! Bool to check if adsorption, main subroutine
51	ini_adsorption_h_PEM, end_adsorption_h_PEM, & ! Allocate arrays
52	co2_adsorbed_phys, h2o_adsorbed_phys ! Mass of co2 and h2O adsorbed
53	use time_evol_mod, only: dt, evol_orbit_pem, Max_iter_pem, convert_years, year_bp_ini
54	use orbit_param_criterion_mod, only: orbit_param_criterion
55	use recomp_orb_param_mod, only: recomp_orb_param
56	use ice_table_mod, only: icetable_depth, icetable_thickness, end_ice_table, ice_porefilling, &
57	ini_ice_table, icetable_equilibrium, icetable_dynamic, computeice_table_equilibrium, compute_massh2o_exchange_ssi
58	use soil_thermalproperties_mod, only: update_soil_thermalproperties
59	use time_phylmdz_mod, only: daysec, dtphys
60	use abort_pem_mod, only: abort_pem
61	use soil_settings_PEM_mod, only: soil_settings_PEM
62	use compute_tend_mod, only: compute_tend
63	use info_PEM_mod, only: info_PEM
64	use get_timelen_PCM_mod, only: get_timelen_PCM
65	use pemetat0_mod, only: pemetat0
66	use read_data_PCM_mod, only: read_data_PCM
67	use recomp_tend_mod, only: recomp_tend_co2, recomp_tend_h2o
68	use compute_soiltemp_mod, only: compute_tsoil_pem, shift_tsoil2surf
69	use writediagpem_mod, only: writediagpem, writediagsoilpem
70	use co2condens_mod, only: CO2cond_ps
71	use layering_mod, only: d_dust, ptrarray, stratum, layering, ini_layering, del_layering, make_layering, get_nb_str_max, nb_str_max, layering_algo
72	use dyn_ss_ice_m_mod, only: dyn_ss_ice_m
73	use version_info_mod, only: print_version_info
74	use paleoclimate_mod, only: h2o_ice_depth, zdqsdif_ssi_tot
75
76	#ifndef CPP_STD
77	use comsoil_h, only: tsoil, nsoilmx, ini_comsoil_h, inertiedat, mlayer, inertiesoil, flux_geo, nqsoil, qsoil
78	use surfdat_h, only: tsurf, qsurf, emis, emissiv, emisice, ini_surfdat_h, &
79	albedodat, albedice, albedo_h2o_frost, albedo_h2o_cap, &
80	zmea, zstd, zsig, zgam, zthe, frost_albedo_threshold, &
81	watercap, watercaptag, perennial_co2ice, albedo_perennialco2
82	use dimradmars_mod, only: totcloudfrac, albedo
83	use dust_param_mod, only: tauscaling
84	use tracer_mod, only: noms, igcm_h2o_ice, igcm_co2, mmol, igcm_h2o_vap ! Tracer names and molar masses
85	use mod_phys_lmdz_para, only: is_parallel, is_sequential, is_mpi_root, is_omp_root, is_master
86	use planete_h, only: aphelie, periheli, year_day, peri_day, obliquit, iniorbit
87	use surfini_mod, only: surfini
88	use comconst_mod, only: pi, rad, g, cpp, kappa
89	use comcstfi_h, only: mugaz
90	#else
91	use tracer_h, only: noms, igcm_h2o_ice, igcm_co2 ! Tracer names
92	use phys_state_var_mod, only: cloudfrac, totcloudfrac, albedo_snow_SPECTV,HICE,RNAT, &
93	PCTSRF_SIC, TSLAB, TSEA_ICE, SEA_ICE, ALBEDO_BAREGROUND, &
94	ALBEDO_CO2_ICE_SPECTV, phys_state_var_init
95	use aerosol_mod, only: iniaerosol
96	use planete_mod, only: apoastr, periastr, year_day, peri_day, obliquit
97	use comcstfi_mod, only: pi, rad, g, mugaz, r
98	#endif
99
100	#ifndef CPP_1D
101	use comconst_mod, only: r
102	use iniphysiq_mod, only: iniphysiq
103	use control_mod, only: iphysiq, day_step, nsplit_phys
104	#else
105	use comcstfi_h, only: r
106	use time_phylmdz_mod, only: iphysiq, steps_per_sol
107	use regular_lonlat_mod, only: init_regular_lonlat
108	use physics_distribution_mod, only: init_physics_distribution
109	use mod_grid_phy_lmdz, only: regular_lonlat
110	use init_testphys1d_mod, only: init_testphys1d
111	use comvert_mod, only: ap, bp
112	use writerestart1D_mod, only: writerestart1D
113	#endif
114
115	implicit none
116
117	include "dimensions.h"
118	include "paramet.h"
119	include "comgeom.h"
120	include "iniprint.h"
121	include "callkeys.h"
122
123	integer ngridmx
124	parameter(ngridmx = 2 + (jjm - 1)*iim - 1/jjm)
125
126	! Same variable names as in the PCM
127	integer, parameter :: nlayer = llm ! Number of vertical layer
128	integer :: ngrid ! Number of physical grid points
129	integer :: nq ! Number of tracer
130	integer :: day_ini ! First day of the simulation
131	real :: pday ! Physical day
132	real :: time_phys ! Same as in PCM
133	real :: ptimestep ! Same as in PCM
134	real :: ztime_fin ! Same as in PCM
135
136	! Variables to read "start.nc"
137	character(*), parameter :: start_name = "start.nc" ! Name of the file used to initialize the PEM
138
139	! Dynamic variables
140	real, dimension(ip1jm,llm) :: vcov ! vents covariants
141	real, dimension(ip1jmp1,llm) :: ucov ! vents covariants
142	real, dimension(ip1jmp1,llm) :: teta ! Potential temperature
143	real, dimension(:,:,:), allocatable :: q ! champs advectes
144	real, dimension(:), allocatable :: pdyn ! pressure for the dynamic grid
145	real, dimension(:), allocatable :: ps_start ! surface pressure in the start file
146	real, dimension(:), allocatable :: ps_start0 ! surface pressure in the start file at the beginning
147	real, dimension(:), allocatable :: ps_avg ! (ngrid) Averaged surface pressure
148	real, dimension(:), allocatable :: ps_dev ! (ngrid x timelen) Surface pressure deviation
149	real, dimension(:,:), allocatable :: ps_timeseries ! (ngrid x timelen) Instantaneous surface pressure
150	real, dimension(ip1jmp1,llm) :: masse ! Air mass
151	real, dimension(ip1jmp1) :: phis ! geopotentiel au sol
152	real :: time_0
153
154	! Variables to read starfi.nc
155	character(*), parameter :: startfi_name = "startfi.nc" ! Name of the file used to initialize the PEM
156	character(2) :: str2
157	integer :: ncid, status ! Variable for handling opening of files
158	integer :: lonvarid, latvarid, areavarid, sdvarid ! Variable ID for Netcdf files
159	integer :: apvarid, bpvarid ! Variable ID for Netcdf files
160
161	! Variables to read starfi.nc and write restartfi.nc
162	real, dimension(:), allocatable :: longitude ! Longitude read in startfi_name and written in restartfi
163	real, dimension(:), allocatable :: latitude ! Latitude read in startfi_name and written in restartfi
164	real, dimension(:), allocatable :: cell_area ! Cell_area read in startfi_name and written in restartfi
165	real :: total_surface ! Total surface of the planet
166
167	! Variables for h2o_ice evolution
168	real, dimension(:,:), allocatable :: h2o_ice ! h2o ice in the PEM
169	real, dimension(:,:), allocatable :: d_h2oice ! physical point x slope field: Tendency of evolution of perennial h2o ice
170	real, dimension(:,:,:), allocatable :: min_h2o_ice ! Minima of h2o ice at each point for the PCM years [kg/m^2]
171	real :: h2oice_ini_surf ! Initial surface of sublimating h2o ice
172	logical, dimension(:,:), allocatable :: is_h2oice_sublim_ini ! Logical array to know if h2o ice is sublimating
173	real :: ps_avg_global_ini ! constant: Global average pressure at initialization [Pa]
174	real :: ps_avg_global_old ! constant: Global average pressure of previous time step
175	real :: ps_avg_global_new ! constant: Global average pressure of current time step
176	real, dimension(:,:), allocatable :: zplev_new ! Grid points x Atmospheric field: mass of the atmospheric layers in the pem at current time step [kg/m^2]
177	real, dimension(:,:), allocatable :: zplev_start0 ! Grid points x Atmospheric field: mass of the atmospheric layers in the start [kg/m^2]
178	real, dimension(:,:,:), allocatable :: zplev_timeseries_new ! Grid points x Atmospheric x Time: same as zplev_new, but in times series [kg/m ^2]
179	real, dimension(:,:,:), allocatable :: zplev_timeseries_old ! same but with the time series, for previous time step
180	integer :: stopPEM ! which criterion is reached? 0 = no stopping; 1 = h2o ice surf; 2 = no h2o ice; 3 = co2 ice surf; 4 = ps; 5 = orb param; 6 = end of simu
181	real :: A, B, mmean ! Molar mass: intermediate A, B for computations of the mean molar mass of the layer [mol/kg]
182	real, dimension(:,:), allocatable :: q_h2o_PEM_phys ! Grid points x Times: h2o mass mixing ratio computed in the PEM, first value comes from PCM [kg/kg]
183	integer :: timelen ! # time samples
184	real :: extra_mass ! Intermediate variables Extra mass of a tracer if it is greater than 1
185
186	! Variables for co2_ice evolution
187	real, dimension(:,:), allocatable :: co2_ice ! co2 ice in the PEM
188	real, dimension(:,:), allocatable :: d_co2ice ! physical point x slope field: Tendency of evolution of perennial co2 ice over a year
189	real, dimension(:,:), allocatable :: d_co2ice_ini ! physical point x slope field: Tendency of evolution of perennial co2 ice over a year in the PCM
190	logical, dimension(:,:), allocatable :: is_co2ice_ini ! Was there co2 ice initially in the PEM?
191	real, dimension(:,:,:), allocatable :: min_co2_ice ! Minimum of co2 ice at each point for the first year [kg/m^2]
192	real :: co2ice_sublim_surf_ini ! Initial surface of sublimating co2 ice
193	logical, dimension(:,:), allocatable :: is_co2ice_sublim_ini ! Logical array to know if co2 ice is sublimating
194	real, dimension(:,:), allocatable :: vmr_co2_PCM ! Grid points x Times co2 volume mixing ratio retrieve from the PCM [m^3/m^3]
195	real, dimension(:,:), allocatable :: vmr_co2_PEM_phys ! Grid points x Times co2 volume mixing ratio used in the PEM
196	real, dimension(:,:), allocatable :: q_co2_PEM_phys ! Grid points x Times co2 mass mixing ratio in the first layer computed in the PEM, first value comes from PCM [kg/kg]
197
198	! Variables for stratification (layering) evolution
199	type(layering), dimension(:,:), allocatable :: stratif ! Layering (linked list of "stratum") for each grid point and slope
200	type(ptrarray), dimension(:,:), allocatable :: current1, current2 ! Current active stratum in the layering
201	logical, dimension(:,:), allocatable :: new_str, new_lag1, new_lag2 ! Flags for the layering algorithm
202
203	! Variables for slopes
204	integer(kind = 1), dimension(:,:), allocatable :: flag_co2flow ! (ngrid,nslope): Flag where there is a CO2 glacier flow
205	integer(kind = 1), dimension(:,:), allocatable :: flag_h2oflow ! (ngrid,nslope): Flag where there is a H2O glacier flow
206
207	! Variables for surface and soil
208	real, dimension(:,:), allocatable :: tsurf_avg ! Grid points x Slope field: Averaged surface temperature [K]
209	real, dimension(:,:), allocatable :: tsurf_dev ! Grid points x Slope field: Surface temperature deviation [K]
210	real, dimension(:,:), allocatable :: tsurf_avg_yr1 ! Grid points x Slope field: Averaged surface temperature of first call of the PCM [K]
211	real, dimension(:,:,:), allocatable :: tsoil_avg ! Grid points x Soil x Slope field: Averaged Soil Temperature [K]
212	real, dimension(:,:), allocatable :: tsoil_avg_old ! Grid points x Soil field: Averaged Soil Temperature at the previous time step [K]
213	real, dimension(:,:,:), allocatable :: tsoil_dev ! Grid points x Soil x Slope field: Soil temperature deviation [K]
214	real, dimension(:,:,:,:), allocatable :: tsoil_timeseries ! Grid points x Soil x Slope x Times field: Soil temperature timeseries [K]
215	real, dimension(:,:,:,:), allocatable :: tsoil_PEM_timeseries ! Grid points x Soil x Slope x Times field: Soil temperature timeseries for PEM [K]
216	real, dimension(:,:,:,:), allocatable :: tsoil_PEM_timeseries_old ! Grid points x Soil x Slope x Times field: Soil temperature timeseries for PEM at the previous time step [K]
217	real, dimension(:,:,:,:), allocatable :: watersoil_density_timeseries ! Grid points x Soil x Slope x Times Water soil density timeseries [kg /m^3]
218	real, dimension(:,:), allocatable :: watersurf_density_avg ! Grid points x Slope: Averaged water surface density [kg/m^3]
219	real, dimension(:,:,:,:), allocatable :: watersoil_density_PEM_timeseries ! Grid points x Soil x Slope x Times: Water soil density timeseries for PEM [kg/m^3]
220	real, dimension(:,:,:), allocatable :: watersoil_density_PEM_avg ! Grid points x Soil x Slopes: Averaged water soil density [kg/m^3]
221	real, dimension(:), allocatable :: delta_co2_adsorbed ! Physics: quantity of CO2 that is exchanged because of adsorption / desorption [kg/m^2]
222	real, dimension(:), allocatable :: delta_h2o_adsorbed ! Physics: quantity of H2O that is exchanged because of adsorption / desorption [kg/m^2]
223	real :: totmassco2_adsorbed ! Total mass of CO2 that is exchanged because of adsorption / desoprtion over the planets [kg]
224	real :: totmassh2o_adsorbed ! Total mass of H2O that is exchanged because of adsorption / desoprtion over the planets [kg]
225	logical, dimension(:,:), allocatable :: co2ice_disappeared ! logical to check if a co2 ice reservoir already disappeared at a previous timestep
226	real, dimension(:,:), allocatable :: icetable_thickness_old ! ngrid x nslope: Thickness of the ice table at the previous iteration [m]
227	real, dimension(:,:,:), allocatable :: ice_porefilling_old ! ngrid x nslope: Ice pore filling at the previous iteration [m]
228	real, dimension(:), allocatable :: delta_h2o_icetablesublim ! ngrid x Total mass of the H2O that has sublimated / condenses from the ice table [kg]
229	real, dimension(:), allocatable :: porefill ! Pore filling (output) to compute the dynamic ice table
230	real :: ssi_depth ! Ice table depth (output) to compute the dynamic ice table
231	real, dimension(:,:), allocatable :: zshift_surf ! Elevation shift for the surface [m]
232	real, dimension(:,:), allocatable :: zlag ! Newly built lag thickness [m]
233	real, dimension(:,:), allocatable :: icetable_depth_old ! Old depth of the ice table
234
235	! Some variables for the PEM run
236	real, parameter :: year_step = 1 ! Timestep for the pem
237	real :: i_myear_leg ! Number of iteration
238	real :: n_myear_leg ! Maximum number of iterations before stopping
239	real :: i_myear ! Global number of Martian years of the chained simulations
240	real :: n_myear ! Maximum number of Martian years of the chained simulations
241	real :: timestep ! Timestep [s]
242	character(100) :: arg ! To read command-line arguments program was invoked
243	logical :: timewall ! Flag to use the time limit stopping criterion in case of a PEM job
244	integer(kind = 8) :: cr ! Number of clock ticks per second (count rate)
245	integer(kind = 8) :: c1, c2 ! Counts of processor clock
246	character(100) :: chtimelimit ! Time limit for the PEM job outputted by the SLURM command
247	real :: timelimit ! Time limit for the PEM job in seconds
248	real, parameter :: antetime = 1200 ! Anticipation time to prevent reaching the time limit: 1200 s = 20 min by default
249	integer :: cstat, days, hours, minutes, seconds
250	character(1) :: sep
251	character(8) :: date
252	character(10) :: time
253	character(5) :: zone
254	integer, dimension(8) :: values
255	character(128) :: dir = ' '
256	character(32) :: logname = ' '
257	character(32) :: hostname = ' '
258
259	#ifdef CPP_STD
260	real :: frost_albedo_threshold = 0.05 ! Frost albedo threeshold to convert fresh frost to old ice
261	real :: albedo_h2o_frost ! Albedo of h2o frost
262	real, dimension(:), allocatable :: tsurf_read_generic ! Temporary variable to do the subslope transfert dimension when reading form generic
263	real, dimension(:,:), allocatable :: qsurf_read_generic ! Temporary variable to do the subslope transfert dimension when reading form generic
264	real, dimension(:,:), allocatable :: tsoil_read_generic ! Temporary variable to do the subslope transfert dimension when reading form generic
265	real, dimension(:), allocatable :: emis_read_generic ! Temporary variable to do the subslope transfert dimension when reading form generic
266	real, dimension(:,:), allocatable :: albedo_read_generic ! Temporary variable to do the subslope transfert dimension when reading form generic
267	real, dimension(:,:), allocatable :: tsurf ! Subslope variable, only needed in the GENERIC case
268	real, dimension(:,:,:), allocatable :: qsurf ! Subslope variable, only needed in the GENERIC case
269	real, dimension(:,:,:), allocatable :: tsoil ! Subslope variable, only needed in the GENERIC case
270	real, dimension(:,:), allocatable :: emis ! Subslope variable, only needed in the GENERIC case
271	real, dimension(:,:), allocatable :: watercap ! Subslope variable, only needed in the GENERIC case =0 no watercap in generic model
272	logical, dimension(:), allocatable :: watercaptag ! Subslope variable, only needed in the GENERIC case =false no watercaptag in generic model
273	real, dimension(:,:,:), allocatable :: albedo ! Subslope variable, only needed in the GENERIC case
274	real, dimension(:,:,:), allocatable :: inertiesoil ! Subslope variable, only needed in the GENERIC case
275	#endif
276
277	#ifdef CPP_1D
278	integer :: nsplit_phys
279	integer, parameter :: jjm_value = jjm - 1
280	integer :: day_step
281
282	! Dummy variables to use the subroutine 'init_testphys1d'
283	logical :: therestart1D, therestartfi
284	integer :: ndt, day0
285	real :: ptif, pks, day, gru, grv, atm_wat_profile, atm_wat_tau
286	real, dimension(:), allocatable :: zqsat
287	real, dimension(:,:,:), allocatable :: dq, dqdyn
288	real, dimension(nlayer) :: play, w
289	real, dimension(nlayer + 1) :: plev
290	#else
291	integer, parameter :: jjm_value = jjm
292	real, dimension(:), allocatable :: ap ! Coefficient ap read in start_name and written in restart
293	real, dimension(:), allocatable :: bp ! Coefficient bp read in start_name and written in restart
294	real, dimension(:,:), allocatable :: p ! Grid points x Atmosphere: pressure to recompute and write in restart (ip1jmp1,llmp1)
295	#endif
296
297	! Loop variables
298	integer :: i, l, ig, nnq, t, islope, ig_loop, islope_loop, isoil, icap
299	logical :: num_str
300
301	write(,) ' * . . + . * . + . . . '
302	write(,) ' + _______ ________ ____ ____ * + '
303	write(,) ' + . * \|_ __ \\|_ __ \|\|_ \ / _\| . *'
304	write(,) ' . . \| \|__) \| \| \|_ \_\| \| \/ \| * * . '
305	write(,) ' . \| ___/ \| _\| _ \| \|\ /\| \| . . '
306	write(,) '. * * _\| \|_ _\| \|__/ \| _\| \|_\/_\| \|_ * '
307	write(,) ' + \|_____\| \|________\|\|_____\|\|_____\| + . '
308	write(,) ' . * . * . + * . + .'
309
310	! Elapsed time with system clock
311	call system_clock(count_rate = cr)
312	call system_clock(c1)
313	timewall = .true.
314	timelimit = 86400 ! 86400 seconds = 24 h by default
315	if (command_argument_count() > 0) then ! Get the number of command-line arguments
316	call get_command_argument(1,arg) ! Read the argument given to the program
317	num_str = .true.
318	do i = 1,len_trim(arg)
319	if (arg(i:i) < '0' .or. arg(i:i) > '9') then
320	num_str = .false.
321	exit
322	endif
323	enddo
324
325	if (num_str) then ! This is a numeric sting so we considerer this is the job id
326	! Execute the system command
327	call execute_command_line('squeue -j '//trim(adjustl(arg))//' -h --Format TimeLimit > tmp_cmdout.txt',cmdstat = cstat)
328	if (cstat /= 0) then
329	call execute_command_line('qstat -f '//trim(adjustl(arg))//' \| grep "Walltime" \| awk ''{print $3}'' > tmp_cmdout.txt',cmdstat = cstat)
330	if (cstat > 0) then
331	error stop 'pem: command execution failed!'
332	else if (cstat < 0) then
333	error stop 'pem: command execution not supported (neither SLURM nor PBS/TORQUE is installed)!'
334	endif
335	endif
336	! Read the output
337	open(1,file = 'tmp_cmdout.txt',status = 'old')
338	read(1,'(a)') chtimelimit
339	close(1)
340	chtimelimit = trim(adjustl(chtimelimit))
341	call execute_command_line('rm tmp_cmdout.txt',cmdstat = cstat)
342	if (cstat > 0) then
343	error stop 'pem: command execution failed!'
344	else if (cstat < 0) then
345	error stop 'pem: command execution not supported!'
346	endif
347	if (index(chtimelimit,'-') > 0) then ! 'chtimelimit' format is "D-HH:MM:SS"
348	read(chtimelimit,'(i1,a1,i2,a1,i2,a1,i2)') days, sep, hours, sep, minutes, sep, seconds
349	timelimit = days86400 + hours3600 + minutes*60 + seconds
350	else if (index(chtimelimit,':') > 0 .and. len_trim(chtimelimit) > 5) then ! 'chtimelimit' format is "HH:MM:SS"
351	read(chtimelimit,'(i2,a1,i2,a1,i2)') hours, sep, minutes, sep, seconds
352	timelimit = hours3600 + minutes60 + seconds
353	else ! 'chtimelimit' format is "MM:SS"
354	read(chtimelimit,'(i2,a1,i2)') minutes, sep, seconds
355	timelimit = minutes*60 + seconds
356	endif
357	else ! Arg is not a numeric string
358	select case (trim(adjustl(arg)))
359	case('version')
360	call print_version_info()
361	stop
362	case default
363	error stop "The argument given to the program is unknown!"
364	end select
365	endif
366	else
367	timewall = .false.
368	endif
369
370	! Some user info
371	call date_and_time(date,time,zone,values)
372	call getcwd(dir) ! Current directory
373	call getlog(logname) ! User name
374	call hostnm(hostname) ! Machine/station name
375	write(,)
376	write(,) '######### PEM information #########'
377	write(,) '+ User : '//trim(logname)
378	write(,) '+ Machine : '//trim(hostname)
379	write(,) '+ Directory: '//trim(dir)
380	write(*,'(a,i2,a,i2,a,i4)') ' + Date : ',values(3),'/',values(2),'/',values(1)
381	write(*,'(a,i2,a,i2,a,i2,a)') ' + Time : ',values(5),':',values(6),':',values(7)
382
383	! Parallel variables
384	#ifndef CPP_STD
385	is_sequential = .true.
386	is_parallel = .false.
387	is_mpi_root = .true.
388	is_omp_root = .true.
389	is_master = .true.
390	#endif
391
392	! Some constants
393	day_ini = 0
394	time_phys = 0.
395	ngrid = ngridmx
396	A = (1./m_co2 - 1./m_noco2)
397	B = 1./m_noco2
398	year_day = 669
399	daysec = 88775.
400	timestep = year_daydaysecyear_step
401
402	!----------------------------- INITIALIZATION --------------------------
403	!------------------------
404	! I Initialization
405	! I_a Read the "run.def"
406	!------------------------
407	write(,)
408	write(,) '######### PEM initialization #########'
409	write(,) '> Reading "run.def" (PEM)'
410	#ifndef CPP_1D
411	dtphys = daysec/48. ! Dummy value (overwritten in phyetat0)
412	call conf_gcm(99,.true.)
413	call infotrac_init
414	nq = nqtot
415	allocate(q(ip1jmp1,llm,nqtot))
416	allocate(longitude(ngrid),latitude(ngrid),cell_area(ngrid))
417	#else
418	allocate(q(1,llm,nqtot),pdyn(1))
419	allocate(longitude(1),latitude(1),cell_area(1))
420
421	therestart1D = .false. ! Default value
422	inquire(file = 'start1D.txt',exist = therestart1D)
423	if (.not. therestart1D) then
424	write(,) 'There is no "start1D.txt" file!'
425	error stop 'Initialization cannot be done for the 1D PEM.'
426	endif
427	therestartfi = .false. ! Default value
428	inquire(file = 'startfi.nc',exist = therestartfi)
429	if (.not. therestartfi) then
430	write(,) 'There is no "startfi.nc" file!'
431	error stop 'Initialization cannot be done for the 1D PEM.'
432	endif
433
434	write(,) '> Reading "start1D.txt" and "startfi.nc"'
435	call init_testphys1d('start1D.txt','startfi.nc',therestart1D,therestartfi,ngrid,nlayer,610.,nq,q, &
436	time_0,pdyn(1),ucov,vcov,teta,ndt,ptif,pks,dtphys,zqsat,dq,dqdyn,day0,day,gru,grv,w, &
437	play,plev,latitude,longitude,cell_area,atm_wat_profile,atm_wat_tau)
438	nsplit_phys = 1
439	day_step = steps_per_sol
440	#endif
441
442	call conf_pem(i_myear,n_myear)
443
444	!------------------------
445	! I Initialization
446	! I_b Read of the "start.nc" and "starfi.nc"
447	!------------------------
448	! I_b.1 Read "start.nc"
449	write(,) '> Reading "start.nc"'
450	allocate(ps_start0(ngrid))
451	#ifndef CPP_1D
452	allocate(pdyn(ip1jmp1))
453	call dynetat0(start_name,vcov,ucov,teta,q,masse,pdyn,phis,time_0)
454
455	call gr_dyn_fi(1,iip1,jjp1,ngridmx,pdyn,ps_start0)
456
457	call iniconst ! Initialization of dynamical constants (comconst_mod)
458	call inigeom ! Initialization of geometry
459
460	allocate(ap(nlayer + 1))
461	allocate(bp(nlayer + 1))
462	status = nf90_open(start_name,NF90_NOWRITE,ncid)
463	status = nf90_inq_varid(ncid,"ap",apvarid)
464	status = nf90_get_var(ncid,apvarid,ap)
465	status = nf90_inq_varid(ncid,"bp",bpvarid)
466	status = nf90_get_var(ncid,bpvarid,bp)
467	status = nf90_close(ncid)
468
469	! Initialization of physics constants and variables (comcstfi_h)
470	call iniphysiq(iim,jjm,llm,(jjm - 1)*iim + 2,comm_lmdz,daysec,day_ini,dtphys/nsplit_phys,rlatu,rlatv,rlonu,rlonv,aire,cu,cv,rad,g,r,cpp,iflag_phys)
471	#else
472	ps_start0(1) = pdyn(1)
473	#endif
474	deallocate(pdyn)
475
476	! In the PCM, these values are given to the physic by the dynamic.
477	! Here we simply read them in the "startfi.nc" file
478	status = nf90_open(startfi_name,NF90_NOWRITE,ncid)
479	status = nf90_inq_varid(ncid,"longitude",lonvarid)
480	status = nf90_get_var(ncid,lonvarid,longitude)
481	status = nf90_inq_varid(ncid,"latitude",latvarid)
482	status = nf90_get_var(ncid,latvarid,latitude)
483	status = nf90_inq_varid(ncid,"area",areavarid)
484	status = nf90_get_var(ncid,areavarid,cell_area)
485	status = nf90_inq_varid(ncid,"soildepth",sdvarid)
486	status = nf90_get_var(ncid,sdvarid,mlayer)
487	status = nf90_close(ncid)
488
489	! I_b.2 Read the "startfi.nc"
490	! First we read the initial state (starfi.nc)
491	#ifndef CPP_STD
492	write(,) '> Reading "startfi.nc"'
493	call phyetat0(startfi_name,0,0,nsoilmx,ngrid,nlayer,nq,nqsoil,day_ini,time_phys,tsurf, &
494	tsoil,albedo,emis,q2,qsurf,qsoil,tauscaling,totcloudfrac,wstar, &
495	watercap,perennial_co2ice,def_slope,def_slope_mean,subslope_dist)
496
497	! Remove unphysical values of surface tracer
498	where (qsurf < 0.) qsurf = 0.
499
500	call surfini(ngrid,nslope,qsurf)
501	#else
502	call phys_state_var_init(nq)
503	if (.not. allocated(noms)) allocate(noms(nq)) ! (because noms is an argument of physdem1 whether or not tracer is on)
504	call initracer(ngrid,nq)
505	call iniaerosol()
506	allocate(tsurf_read_generic(ngrid))
507	allocate(qsurf_read_generic(ngrid,nq))
508	allocate(tsoil_read_generic(ngrid,nsoilmx))
509	allocate(qsoil_read_generic(ngrid,nsoilmx,nqsoil,nslope))
510	allocate(emis_read_generic(ngrid))
511	allocate(albedo_read_generic(ngrid,2))
512	allocate(qsurf(ngrid,nq,1))
513	allocate(tsurf(ngrid,1))
514	allocate(tsoil(ngrid,nsoilmx,1))
515	allocate(emis(ngrid,1))
516	allocate(watercap(ngrid,1))
517	allocate(watercaptag(ngrid))
518	allocate(albedo(ngrid,2,1))
519	allocate(inertiesoil(ngrid,nsoilmx,1))
520	call phyetat0(.true.,ngrid,nlayer,startfi_name,0,0,nsoilmx,nq,nqsoil,day_ini,time_phys, &
521	tsurf_read_generic,tsoil_read_generic,emis_read_generic,q2, &
522	qsurf_read_generic,qsoil_read_generic,cloudfrac,totcloudfrac,hice, &
523	rnat,pctsrf_sic,tslab,tsea_ice,sea_ice)
524	call surfini(ngrid,nq,qsurf_read_generic,albedo_read_generic,albedo_bareground,albedo_snow_SPECTV,albedo_co2_ice_SPECTV)
525
526	nslope = 1
527	call ini_comslope_h(ngrid,1)
528
529	qsurf(:,:,1) = qsurf_read_generic
530	tsurf(:,1) = tsurf_read_generic
531	tsoil(:,:,1) = tsoil_read_generic
532	emis(:,1) = emis_read_generic
533	watercap(:,1) = 0.
534	watercaptag(:) = .false.
535	albedo(:,1,1) = albedo_read_generic(:,1)
536	albedo(:,2,1) = albedo_read_generic(:,2)
537	inertiesoil(:,:,1) = inertiedat
538
539	if (nslope == 1) then
540	def_slope(1) = 0
541	def_slope(2) = 0
542	def_slope_mean = 0
543	subslope_dist(:,1) = 1.
544	endif
545
546	! Remove unphysical values of surface tracer
547	qsurf(:,:,1) = qsurf_read_generic
548	where (qsurf < 0.) qsurf = 0.
549
550	deallocate(tsurf_read_generic,qsurf_read_generic,qsoil_read_generic,emis_read_generic)
551	#endif
552
553	do nnq = 1,nqtot ! Why not using ini_tracer?
554	if (noms(nnq) == "h2o_ice") igcm_h2o_ice = nnq
555	if (noms(nnq) == "h2o_vap") then
556	igcm_h2o_vap = nnq
557	mmol(igcm_h2o_vap) = 18.
558	endif
559	if (noms(nnq) == "co2") igcm_co2 = nnq
560	enddo
561
562	!------------------------
563	! I Initialization
564	! I_c Subslope parametrisation
565	!------------------------
566	! Define some slope statistics
567	iflat = 1
568	do islope = 2,nslope
569	if (abs(def_slope_mean(islope)) < abs(def_slope_mean(iflat))) iflat = islope
570	enddo
571	write(,) 'Flat slope for islope = ',iflat
572	write(,) 'Corresponding criterium = ',def_slope_mean(iflat)
573
574	!------------------------
575	! I Initialization
576	! I_d Read the PCM data and convert them to the physical grid
577	!------------------------
578	! First we read the evolution of water and co2 ice (and the mass mixing ratio) over the first year of the PCM run, saving only the minimum value
579	call get_timelen_PCM("data_PCM_Y1.nc",timelen)
580
581	allocate(vmr_co2_PCM(ngrid,timelen),q_co2_PEM_phys(ngrid,timelen),q_h2o_PEM_phys(ngrid,timelen))
582	allocate(ps_timeseries(ngrid,timelen),ps_avg(ngrid))
583	allocate(min_co2_ice(ngrid,nslope,2),min_h2o_ice(ngrid,nslope,2))
584	allocate(tsurf_avg_yr1(ngrid,nslope),tsurf_avg(ngrid,nslope))
585	allocate(tsoil_avg(ngrid,nsoilmx,nslope),tsoil_timeseries(ngrid,nsoilmx,nslope,timelen))
586	allocate(watersurf_density_avg(ngrid,nslope),watersoil_density_timeseries(ngrid,nsoilmx,nslope,timelen))
587
588	call read_data_PCM("data_PCM_Y1.nc","data_PCM_Y2.nc",timelen,iim,jjm_value,ngrid,nslope,vmr_co2_PCM,ps_timeseries,ps_avg,tsurf_avg_yr1,tsurf_avg, &
589	tsoil_avg,tsoil_timeseries,min_co2_ice,min_h2o_ice,q_co2_PEM_phys,q_h2o_PEM_phys,watersurf_density_avg,watersoil_density_timeseries)
590
591	! Compute the deviation from the average
592	allocate(ps_dev(ngrid),tsurf_dev(ngrid,nslope),tsoil_dev(ngrid,nsoilmx,nslope))
593	ps_dev = ps_start0 - ps_avg
594	tsurf_dev = tsurf - tsurf_avg
595	tsoil_dev = tsoil - tsoil_avg(:,1:nsoilmx,:)
596
597	!------------------------
598	! I Initialization
599	! I_e Initialization of the PEM variables and soil
600	!------------------------
601	call end_comsoil_h_PEM
602	call ini_comsoil_h_PEM(ngrid,nslope)
603	call end_adsorption_h_PEM
604	call ini_adsorption_h_PEM(ngrid,nslope,nsoilmx_PEM)
605	call end_ice_table
606	call ini_ice_table(ngrid,nslope,nsoilmx_PEM)
607
608	allocate(tsoil_PEM_timeseries(ngrid,nsoilmx_PEM,nslope,timelen),watersoil_density_PEM_avg(ngrid,nsoilmx_PEM,nslope),watersoil_density_PEM_timeseries(ngrid,nsoilmx_PEM,nslope,timelen))
609	if (soil_pem) then
610	call soil_settings_PEM(ngrid,nslope,nsoilmx_PEM,nsoilmx,inertiesoil,TI_PEM)
611	tsoil_PEM(:,1:nsoilmx,:) = tsoil_avg
612	watersoil_density_PEM_timeseries(:,1:nsoilmx,:,:) = watersoil_density_timeseries
613	tsoil_PEM_timeseries(:,1:nsoilmx,:,:) = tsoil_timeseries
614	do l = nsoilmx + 1,nsoilmx_PEM
615	tsoil_PEM(:,l,:) = tsoil_avg(:,nsoilmx,:)
616	watersoil_density_PEM_timeseries(:,l,:,:) = watersoil_density_timeseries(:,nsoilmx,:,:)
617	tsoil_PEM_timeseries(:,l,:,:) = tsoil_timeseries(:,nsoilmx,:,:)
618	enddo
619	watersoil_density_PEM_avg = sum(watersoil_density_PEM_timeseries,4)/timelen
620	endif !soil_pem
621	deallocate(tsoil_avg,watersoil_density_timeseries,tsoil_timeseries)
622
623	!------------------------
624	! I Initialization
625	! I_f Compute tendencies
626	!------------------------
627	allocate(d_co2ice(ngrid,nslope),d_h2oice(ngrid,nslope),d_co2ice_ini(ngrid,nslope))
628	call compute_tend(ngrid,nslope,min_co2_ice,d_co2ice)
629	call compute_tend(ngrid,nslope,min_h2o_ice,d_h2oice)
630	d_co2ice_ini = d_co2ice
631	deallocate(min_co2_ice,min_h2o_ice)
632
633	!------------------------
634	! I Initialization
635	! I_g Compute global surface pressure
636	!------------------------
637	total_surface = sum(cell_area)
638	ps_avg_global_ini = sum(cell_area*ps_avg)/total_surface
639	ps_avg_global_new = ps_avg_global_ini
640	write(,) "Total surface of the planet =", total_surface
641	write(,) "Initial global averaged pressure =", ps_avg_global_ini
642
643	!------------------------
644	! I Initialization
645	! I_h Read the "startpem.nc"
646	!------------------------
647	write(,) '> Reading "startpem.nc"'
648	allocate(co2_ice(ngrid,nslope),h2o_ice(ngrid,nslope),stratif(ngrid,nslope))
649	allocate(delta_h2o_adsorbed(ngrid),delta_co2_adsorbed(ngrid),delta_h2o_icetablesublim(ngrid))
650	if (layering_algo) then
651	do islope = 1,nslope
652	do i = 1,ngrid
653	call ini_layering(stratif(i,islope))
654	enddo
655	enddo
656	endif
657
658	delta_h2o_icetablesublim = 0.
659	call pemetat0("startpem.nc",ngrid,nsoilmx,nsoilmx_PEM,nslope,timelen,timestep,TI_PEM,tsoil_PEM,icetable_depth,icetable_thickness,ice_porefilling, &
660	tsurf_avg_yr1,tsurf_avg,q_co2_PEM_phys,q_h2o_PEM_phys,ps_timeseries,ps_avg_global_ini,d_h2oice,d_co2ice,co2_ice,h2o_ice, &
661	watersurf_density_avg,watersoil_density_PEM_avg,co2_adsorbed_phys,delta_co2_adsorbed,h2o_adsorbed_phys,delta_h2o_adsorbed,stratif)
662	deallocate(tsurf_avg_yr1)
663
664	! We save the places where h2o ice is sublimating
665	! We compute the surface of h2o ice sublimating
666	allocate(is_co2ice_sublim_ini(ngrid,nslope),is_h2oice_sublim_ini(ngrid,nslope),is_co2ice_ini(ngrid,nslope),co2ice_disappeared(ngrid,nslope))
667	co2ice_sublim_surf_ini = 0.
668	h2oice_ini_surf = 0.
669	is_co2ice_sublim_ini = .false.
670	is_h2oice_sublim_ini = .false.
671	is_co2ice_ini = .false.
672	co2ice_disappeared = .false.
673	do i = 1,ngrid
674	do islope = 1,nslope
675	if (co2_ice(i,islope) > 0.) is_co2ice_ini(i,islope) = .true.
676	if (d_co2ice(i,islope) < 0. .and. co2_ice(i,islope) > 0.) then
677	is_co2ice_sublim_ini(i,islope) = .true.
678	co2ice_sublim_surf_ini = co2ice_sublim_surf_ini + cell_area(i)*subslope_dist(i,islope)
679	endif
680	if (d_h2oice(i,islope) < 0. .and. h2o_ice(i,islope) > 0.) then
681	is_h2oice_sublim_ini(i,islope) = .true.
682	h2oice_ini_surf = h2oice_ini_surf + cell_area(i)*subslope_dist(i,islope)
683	endif
684	enddo
685	enddo
686	write(,) "Total initial surface of CO2 ice sublimating =", co2ice_sublim_surf_ini
687	write(,) "Total initial surface of H2O ice sublimating =", h2oice_ini_surf
688
689	if (adsorption_pem) then
690	totmassco2_adsorbed = 0.
691	totmassh2o_adsorbed = 0.
692	do ig = 1,ngrid
693	do islope = 1,nslope
694	do l = 1,nsoilmx_PEM - 1
695	if (l == 1) then
696	totmassco2_adsorbed = totmassco2_adsorbed + co2_adsorbed_phys(ig,l,islope)(layer_PEM(l)) &
697	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
698	totmassh2o_adsorbed = totmassh2o_adsorbed + h2o_adsorbed_phys(ig,l,islope)(layer_PEM(l)) &
699	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
700	else
701	totmassco2_adsorbed = totmassco2_adsorbed + co2_adsorbed_phys(ig,l,islope)(layer_PEM(l) - layer_PEM(l-1)) &
702	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
703	totmassh2o_adsorbed = totmassh2o_adsorbed + h2o_adsorbed_phys(ig,l,islope)(layer_PEM(l) - layer_PEM(l-1)) &
704	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
705	endif
706	enddo
707	enddo
708	enddo
709	write(,) "Tot mass of CO2 in the regolith =", totmassco2_adsorbed
710	write(,) "Tot mass of H2O in the regolith =", totmassh2o_adsorbed
711	endif ! adsorption
712
713	!------------------------
714	! I Initialization
715	! I_i Compute orbit criterion
716	!------------------------
717	#ifndef CPP_STD
718	call iniorbit(aphelie,periheli,year_day,peri_day,obliquit)
719	#else
720	call iniorbit(apoastr,periastr,year_day,peri_day,obliquit)
721	#endif
722
723	n_myear_leg = Max_iter_pem
724	if (evol_orbit_pem) call orbit_param_criterion(i_myear,n_myear_leg)
725
726	!-------------------------- END INITIALIZATION -------------------------
727
728	!-------------------------------- RUN ----------------------------------
729	!------------------------
730	! II Run
731	! II_a Update pressure, ice and tracers
732	!------------------------
733	write(,)
734	write(,) '######### PEM cycle #########'
735	i_myear_leg = 0
736	stopPEM = 0
737	if (layering_algo) then
738	allocate(new_str(ngrid,nslope),new_lag1(ngrid,nslope),new_lag2(ngrid,nslope),current1(ngrid,nslope),current2(ngrid,nslope))
739	new_str = .true.
740	new_lag1 = .true.
741	new_lag2 = .true.
742	do islope = 1,nslope
743	do ig = 1,ngrid
744	current1(ig,islope)%p => stratif(ig,islope)%top
745	current2(ig,islope)%p => stratif(ig,islope)%top
746	enddo
747	enddo
748	endif
749
750	do while (i_myear_leg < n_myear_leg .and. i_myear < n_myear)
751	! II.a.1. Compute updated global pressure
752	write(*,'(a,f10.2)') ' #### Iteration of the PEM leg (Martian years): ', i_myear_leg + 1
753	write(,) "> Updating the surface pressure"
754	ps_avg_global_old = ps_avg_global_new
755	do i = 1,ngrid
756	do islope = 1,nslope
757	ps_avg_global_new = ps_avg_global_new - CO2cond_psgcell_area(i)d_co2ice(i,islope)subslope_dist(i,islope)/cos(pi*def_slope_mean(islope)/180.)/total_surface
758	enddo
759	enddo
760
761	if (adsorption_pem) then
762	do i = 1,ngrid
763	ps_avg_global_new = ps_avg_global_new - gcell_area(i)delta_co2_adsorbed(i)/total_surface
764	enddo
765	endif
766	write(,) 'Global average pressure old time step:',ps_avg_global_old
767	write(,) 'Global average pressure new time step:',ps_avg_global_new
768
769	! II.a.2. Pressure timeseries (the values are deleted when unused because of big memory consumption)
770	write(,) "> Updating the surface pressure timeseries for the new pressure"
771	allocate(zplev_timeseries_old(ngrid,nlayer + 1,timelen))
772	do l = 1,nlayer + 1
773	do ig = 1,ngrid
774	zplev_timeseries_old(ig,l,:) = ap(l) + bp(l)*ps_timeseries(ig,:)
775	enddo
776	enddo
777	do ig = 1,ngrid
778	ps_timeseries(ig,:) = ps_timeseries(ig,:)*ps_avg_global_new/ps_avg_global_old
779	enddo
780	write(,) "> Updating the pressure levels timeseries for the new pressure"
781	allocate(zplev_timeseries_new(ngrid,nlayer + 1,timelen))
782	do l = 1,nlayer + 1
783	do ig = 1,ngrid
784	zplev_timeseries_new(ig,l,:) = ap(l) + bp(l)*ps_timeseries(ig,:)
785	enddo
786	enddo
787
788	! II.a.3. Tracers timeseries
789	write(,) "> Updating the tracer VMR timeseries for the new pressure"
790	allocate(vmr_co2_PEM_phys(ngrid,timelen))
791	l = 1
792	do ig = 1,ngrid
793	do t = 1,timelen
794	! H2O
795	q_h2o_PEM_phys(ig,t) = q_h2o_PEM_phys(ig,t)*(zplev_timeseries_old(ig,l,t) - zplev_timeseries_old(ig,l + 1,t))/ &
796	(zplev_timeseries_new(ig,l,t) - zplev_timeseries_new(ig,l + 1,t))
797	if (q_h2o_PEM_phys(ig,t) < 0) then
798	q_h2o_PEM_phys(ig,t) = 1.e-30
799	else if (q_h2o_PEM_phys(ig,t) > 1) then
800	q_h2o_PEM_phys(ig,t) = 1.
801	endif
802	! CO2
803	q_co2_PEM_phys(ig,t) = q_co2_PEM_phys(ig,t)*(zplev_timeseries_old(ig,l,t) - zplev_timeseries_old(ig,l + 1,t))/ &
804	(zplev_timeseries_new(ig,l,t) - zplev_timeseries_new(ig,l + 1,t)) &
805	+ ((zplev_timeseries_new(ig,l,t) - zplev_timeseries_new(ig,l + 1,t)) &
806	- (zplev_timeseries_old(ig,l,t) - zplev_timeseries_old(ig,l + 1,t)))/ &
807	(zplev_timeseries_new(ig,l,t) - zplev_timeseries_new(ig,l + 1,t))
808	if (q_co2_PEM_phys(ig,t) < 0) then
809	q_co2_PEM_phys(ig,t) = 1.e-30
810	else if (q_co2_PEM_phys(ig,t) > 1) then
811	q_co2_PEM_phys(ig,t) = 1.
812	endif
813	mmean = 1./(A*q_co2_PEM_phys(ig,t) + B)
814	vmr_co2_PEM_phys(ig,t) = q_co2_PEM_phys(ig,t)*mmean/m_co2
815	enddo
816	enddo
817	deallocate(zplev_timeseries_new,zplev_timeseries_old)
818
819	!------------------------
820	! II Run
821	! II_b Evolution of ice
822	!------------------------
823	allocate(zshift_surf(ngrid,nslope),zlag(ngrid,nslope))
824	call evol_h2o_ice(ngrid,nslope,cell_area,delta_h2o_adsorbed,delta_h2o_icetablesublim,h2o_ice,d_h2oice,zshift_surf,stopPEM)
825	call evol_co2_ice(ngrid,nslope,co2_ice,d_co2ice,zshift_surf)
826	if (layering_algo) then
827	do islope = 1,nslope
828	do ig = 1,ngrid
829	call make_layering(stratif(ig,islope),d_co2ice(ig,islope),d_h2oice(ig,islope),d_dust,new_str(ig,islope),zshift_surf(ig,islope),new_lag1(ig,islope),new_lag2(ig,islope),zlag(ig,islope),stopPEM,current1(ig,islope)%p,current2(ig,islope)%p)
830	enddo
831	enddo
832	else
833	zlag = 0.
834	endif
835
836	!------------------------
837	! II Run
838	! II_c Flow of glaciers
839	!------------------------
840	allocate(flag_co2flow(ngrid,nslope),flag_h2oflow(ngrid,nslope))
841	if (co2ice_flow .and. nslope > 1) call flow_co2glaciers(timelen,ngrid,nslope,iflat,subslope_dist,def_slope_mean,vmr_co2_PEM_phys, &
842	ps_timeseries,ps_avg_global_old,ps_avg_global_new,co2_ice,flag_co2flow)
843	if (h2oice_flow .and. nslope > 1) call flow_h2oglaciers(ngrid,nslope,iflat,subslope_dist,def_slope_mean,tsurf_avg,h2o_ice,flag_h2oflow)
844
845	!------------------------
846	! II Run
847	! II_d Update surface and soil temperatures
848	!------------------------
849	! II_d.1 Update Tsurf
850	write(,) "> Updating surface temperature"
851	do ig = 1,ngrid
852	do islope = 1,nslope
853	! CO2 ice disappeared so we look for the closest point without CO2 ice
854	if (is_co2ice_ini(ig,islope) .and. co2_ice(ig,islope) < 1.e-10 .and. .not. co2ice_disappeared(ig,islope)) then
855	co2ice_disappeared(ig,islope) = .true.
856	if (latitude_deg(ig) > 0.) then ! North hemisphere
857	outer1: do ig_loop = ig,ngrid ! Go towards equator
858	do islope_loop = islope - 1,1,-1 ! Go over the slopes (backward numbering - should be equator-ward)
859	if (.not. is_co2ice_ini(ig_loop,islope_loop) .and. co2_ice(ig_loop,islope_loop) < 1.e-10) then
860	tsurf_avg(ig,islope) = tsurf_avg(ig_loop,islope_loop)
861	exit outer1
862	endif
863	enddo
864	do islope_loop = islope + 1,nslope ! Go over the slopes (forward numbering - should be pole-ward)
865	if (.not. is_co2ice_ini(ig_loop,islope_loop) .and. co2_ice(ig_loop,islope_loop) < 1.e-10) then
866	tsurf_avg(ig,islope) = tsurf_avg(ig_loop,islope_loop)
867	exit outer1
868	endif
869	enddo
870	enddo outer1
871	else ! South hemisphere
872	outer2: do ig_loop = ig,1,-1 ! Go towards equator
873	do islope_loop = islope + 1,nslope ! Go over the slopes (forward numbering - should be equator-ward)
874	if (.not. is_co2ice_ini(ig_loop,islope_loop) .and. co2_ice(ig_loop,islope_loop) < 1.e-10) then
875	tsurf_avg(ig,islope) = tsurf_avg(ig_loop,islope_loop)
876	exit outer2
877	endif
878	enddo
879	do islope_loop = islope - 1,1,-1 ! Go over the slopes (backward numbering - should be pole-ward)
880	if (.not. is_co2ice_ini(ig_loop,islope_loop) .and. co2_ice(ig_loop,islope_loop) < 1.e-10) then
881	tsurf_avg(ig,islope) = tsurf_avg(ig_loop,islope_loop)
882	exit outer2
883	endif
884	enddo
885	enddo outer2
886	endif
887	else if (co2_ice(ig,islope) > 1.e-10 .and. d_co2ice(ig,islope) > 1.e-10) then ! Put tsurf as Tcond CO2
888	call computeTcondCO2(timelen,ngrid,nslope,vmr_co2_PEM_phys,ps_timeseries,ps_avg_global_ini,ps_avg_global_new,tsurf_avg)
889	endif
890	enddo
891	enddo
892
893	if (soil_pem) then
894	! II_d.2 Shifting soil temperature to surface
895	call shift_tsoil2surf(ngrid,nsoilmx_PEM,nslope,zshift_surf,zlag,tsurf_avg,tsoil_PEM)
896
897	! II_d.3 Update soil temperature
898	write(,)"> Updating soil temperature profile"
899	allocate(tsoil_avg_old(ngrid,nsoilmx_PEM),tsoil_PEM_timeseries_old(ngrid,nsoilmx_PEM,nslope,timelen))
900	tsoil_PEM_timeseries_old = tsoil_PEM_timeseries
901	do islope = 1,nslope
902	tsoil_avg_old = tsoil_PEM(:,:,islope)
903	call compute_tsoil_pem(ngrid,nsoilmx_PEM,.true.,TI_PEM(:,:,islope),timestep,tsurf_avg(:,islope),tsoil_PEM(:,:,islope))
904	call compute_tsoil_pem(ngrid,nsoilmx_PEM,.false.,TI_PEM(:,:,islope),timestep,tsurf_avg(:,islope),tsoil_PEM(:,:,islope))
905
906	do t = 1,timelen
907	do ig = 1,ngrid
908	do isoil = 1,nsoilmx_PEM
909	! Update of soil temperature timeseries which is needed to compute the water soil density timeseries
910	tsoil_PEM_timeseries(ig,isoil,islope,t) = tsoil_PEM_timeseries(ig,isoil,islope,t)*tsoil_PEM(ig,isoil,islope)/tsoil_avg_old(ig,isoil)
911	! Update of watersoil density
912	watersoil_density_PEM_timeseries(ig,isoil,islope,t) = exp(beta_clap_h2o/tsoil_PEM_timeseries(ig,isoil,islope,t) + alpha_clap_h2o)/tsoil_PEM_timeseries(ig,isoil,islope,t)mmol(igcm_h2o_vap)/(mugazr)
913	if (isnan(tsoil_PEM(ig,isoil,islope))) call abort_pem("PEM - Update Tsoil","NaN detected in tsoil_PEM",1)
914	enddo
915	enddo
916	enddo
917	enddo
918	watersoil_density_PEM_avg = sum(watersoil_density_PEM_timeseries,4)/timelen
919	deallocate(tsoil_avg_old)
920
921	! II_d.4 Update the ice table
922	allocate(icetable_thickness_old(ngrid,nslope),ice_porefilling_old(ngrid,nsoilmx_PEM,nslope),icetable_depth_old(ngrid,nslope))
923	if (icetable_equilibrium) then
924	write(,) "> Updating ice table (equilibrium method)"
925	icetable_thickness_old = icetable_thickness
926	call computeice_table_equilibrium(ngrid,nslope,nsoilmx_PEM,watercaptag,watersurf_density_avg,watersoil_density_PEM_avg,TI_PEM(:,1,:),icetable_depth,icetable_thickness)
927	call compute_massh2o_exchange_ssi(ngrid,nslope,nsoilmx_PEM,icetable_thickness_old,ice_porefilling_old,tsurf_avg,tsoil_PEM,delta_h2o_icetablesublim) ! Mass of H2O exchange between the ssi and the atmosphere
928	else if (icetable_dynamic) then
929	write(,) "> Updating ice table (dynamic method)"
930	ice_porefilling_old = ice_porefilling
931	icetable_depth_old = icetable_depth
932	allocate(porefill(nsoilmx_PEM))
933	do ig = 1,ngrid
934	do islope = 1,nslope
935	call dyn_ss_ice_m(icetable_depth(ig,islope),tsurf_avg(ig,islope),tsoil_PEM(ig,:,islope),nsoilmx_PEM,TI_PEM(ig,1,nslope),ps_avg(ig),(/sum(q_h2o_PEM_phys(ig,:))/size(q_h2o_PEM_phys,2)/),ice_porefilling(ig,:,islope),porefill,ssi_depth)
936	icetable_depth(ig,islope) = ssi_depth
937	ice_porefilling(ig,:,islope) = porefill
938	enddo
939	enddo
940	deallocate(porefill)
941	call compute_massh2o_exchange_ssi(ngrid,nslope,nsoilmx_PEM,icetable_thickness_old,ice_porefilling_old,tsurf_avg, tsoil_PEM,delta_h2o_icetablesublim) ! Mass of H2O exchange between the ssi and the atmosphere
942	endif
943	deallocate(icetable_thickness_old,ice_porefilling_old)
944
945	! II_d.5 Update the soil thermal properties
946	call update_soil_thermalproperties(ngrid,nslope,nsoilmx_PEM,d_h2oice,h2o_ice,ps_avg_global_new,icetable_depth,icetable_thickness,ice_porefilling,icetable_equilibrium,icetable_dynamic,TI_PEM)
947
948	! II_d.6 Update the mass of the regolith adsorbed
949	if (adsorption_pem) then
950	call regolith_adsorption(ngrid,nslope,nsoilmx_PEM,timelen,d_h2oice,d_co2ice,h2o_ice,co2_ice, &
951	tsoil_PEM,TI_PEM,ps_timeseries,q_co2_PEM_phys,q_h2o_PEM_phys, &
952	h2o_adsorbed_phys,delta_h2o_adsorbed,co2_adsorbed_phys,delta_co2_adsorbed)
953
954	totmassco2_adsorbed = 0.
955	totmassh2o_adsorbed = 0.
956	do ig = 1,ngrid
957	do islope = 1,nslope
958	do l = 1,nsoilmx_PEM
959	if (l == 1) then
960	totmassco2_adsorbed = totmassco2_adsorbed + co2_adsorbed_phys(ig,l,islope)(layer_PEM(l)) &
961	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
962	totmassh2o_adsorbed = totmassh2o_adsorbed + h2o_adsorbed_phys(ig,l,islope)(layer_PEM(l)) &
963	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
964	else
965	totmassco2_adsorbed = totmassco2_adsorbed + co2_adsorbed_phys(ig,l,islope)(layer_PEM(l) - layer_PEM(l - 1)) &
966	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
967	totmassh2o_adsorbed = totmassh2o_adsorbed + h2o_adsorbed_phys(ig,l,islope)(layer_PEM(l) - layer_PEM(l - 1)) &
968	subslope_dist(ig,islope)/cos(pidef_slope_mean(islope)/180.)cell_area(ig)
969	endif
970	enddo
971	enddo
972	enddo
973	write(,) "Total mass of CO2 in the regolith =", totmassco2_adsorbed
974	write(,) "Total mass of H2O in the regolith =", totmassh2o_adsorbed
975	endif
976	endif !soil_pem
977	deallocate(zshift_surf,zlag)
978
979	!------------------------
980	! II Run
981	! II_e Outputs
982	!------------------------
983	call writediagpem(ngrid,'ps_avg','Global average pressure','Pa',0,(/ps_avg_global_new/))
984	do islope = 1,nslope
985	write(str2(1:2),'(i2.2)') islope
986	call writediagpem(ngrid,'h2o_ice_slope'//str2,'H2O ice','kg.m-2',2,h2o_ice(:,islope))
987	call writediagpem(ngrid,'co2_ice_slope'//str2,'CO2 ice','kg.m-2',2,co2_ice(:,islope))
988	call writediagpem(ngrid,'d_h2oice_slope'//str2,'H2O ice tend','kg.m-2.year-1',2,d_h2oice(:,islope))
989	call writediagpem(ngrid,'d_co2ice_slope'//str2,'CO2 ice tend','kg.m-2.year-1',2,d_co2ice(:,islope))
990	call writediagpem(ngrid,'Flow_co2ice_slope'//str2,'CO2 ice flow','Boolean',2,real(flag_co2flow(:,islope)))
991	call writediagpem(ngrid,'Flow_h2oice_slope'//str2,'H2O ice flow','Boolean',2,real(flag_h2oflow(:,islope)))
992	call writediagpem(ngrid,'tsurf_slope'//str2,'tsurf','K',2,tsurf_avg(:,islope))
993	if (icetable_equilibrium) then
994	call writediagpem(ngrid,'ssi_depth_slope'//str2,'ice table depth','m',2,icetable_depth(:,islope))
995	call writediagpem(ngrid,'ssi_thick_slope'//str2,'ice table thickness','m',2,icetable_thickness(:,islope))
996	else if (icetable_dynamic) then
997	call writediagpem(ngrid,'ssi_depth_slope'//str2,'ice table depth','m',2,icetable_depth(:,islope))
998	endif
999
1000	if (soil_pem) then
1001	call writediagsoilpem(ngrid,'tsoil_PEM_slope'//str2,'tsoil','K',3,tsoil_PEM(:,:,islope))
1002	call writediagsoilpem(ngrid,'inertiesoil_PEM_slope'//str2,'TI','K',3,TI_PEM(:,:,islope))
1003	if (icetable_dynamic) call writediagsoilpem(ngrid,'ice_porefilling'//str2,'ice pore filling','-',3,ice_porefilling(:,:,islope))
1004	if (adsorption_pem) then
1005	call writediagsoilpem(ngrid,'co2_ads_slope'//str2,'co2_ads','K',3,co2_adsorbed_phys(:,:,islope))
1006	call writediagsoilpem(ngrid,'h2o_ads_slope'//str2,'h2o_ads','K',3,h2o_adsorbed_phys(:,:,islope))
1007	endif
1008	endif
1009	enddo
1010	deallocate(flag_co2flow,flag_h2oflow)
1011
1012	!------------------------
1013	! II Run
1014	! II_f Update the tendencies
1015	!------------------------
1016	call recomp_tend_co2(ngrid,nslope,timelen,d_co2ice,d_co2ice_ini,co2_ice,emis,vmr_co2_PCM,vmr_co2_PEM_phys,ps_timeseries,ps_avg_global_old,ps_avg_global_new)
1017	!write(,) "> Updating the H2O sub-surface ice tendency due to lag layer"
1018	!do ig = 1,ngrid
1019	! do islope = 1,nslope
1020	! call recomp_tend_h2o(icetable_depth_old(ig,islope),icetable_depth(ig,islope),tsurf_avg(ig,islope),tsoil_PEM_timeseries_old(ig,:,islope,:),tsoil_PEM_timeseries(ig,:,islope,:),d_h2oice(ig,islope))
1021	! enddo
1022	!enddo
1023	if (soil_pem) deallocate(icetable_depth_old,tsoil_PEM_timeseries_old)
1024	deallocate(vmr_co2_PEM_phys)
1025
1026	!------------------------
1027	! II Run
1028	! II_g Checking the stopping criterion
1029	!------------------------
1030	write(,) "> Checking the stopping criteria"
1031	call stopping_crit_h2o_ice(cell_area,h2oice_ini_surf,is_h2oice_sublim_ini,h2o_ice,stopPEM,ngrid)
1032	call stopping_crit_co2(cell_area,co2ice_sublim_surf_ini,is_co2ice_sublim_ini,co2_ice,stopPEM,ngrid,ps_avg_global_ini,ps_avg_global_new,nslope)
1033	i_myear_leg = i_myear_leg + dt
1034	i_myear = i_myear + dt
1035	if (stopPEM <= 0 .and. i_myear_leg >= n_myear_leg) stopPEM = 5
1036	if (stopPEM <= 0 .and. i_myear >= n_myear) stopPEM = 6
1037	call system_clock(c2)
1038	if (stopPEM <= 0 .and. timewall .and. real((c2 - c1)/cr) >= timelimit - antetime) stopPEM = 7
1039	if (stopPEM > 0) then
1040	select case (stopPEM)
1041	case(1)
1042	write(*,'(a,i0,a)') " #### STOPPING because surface of h2o ice sublimating is too low: ", stopPEM, ". See message above."
1043	case(2)
1044	write(*,'(a,i0,a)') " #### STOPPING because tendencies on h2o ice = 0: ", stopPEM, ". See message above."
1045	case(3)
1046	write(*,'(a,i0,a)') " #### STOPPING because surface of co2 ice sublimating is too low: ", stopPEM, ". See message above."
1047	case(4)
1048	write(*,'(a,i0,a)') " #### STOPPING because surface global pressure changed too much: ", stopPEM, ". See message above."
1049	case(5)
1050	write(*,'(a,i0)') " #### STOPPING because maximum number of iterations is reached (possibly due to orbital parameters): ", stopPEM
1051	case(6)
1052	write(*,'(a,i0)') " #### STOPPING because maximum number of Martian years to be simulated is reached: ", stopPEM
1053	case(7)
1054	write(*,'(a,i0)') " #### STOPPING because the time limit for the PEM job will be reached soon: ", stopPEM
1055	case(8)
1056	write(*,'(a,i0)') " #### STOPPING because the layering algorithm met an hasty end: ", stopPEM
1057	case default
1058	write(*,'(a,i0)') " #### STOPPING with unknown stopping criterion code: ", stopPEM
1059	end select
1060	exit
1061	else
1062	write(*,'(a,f10.2,a)') ' #### The chained simulation has run for ',i_myear,' Martian years.'
1063	write(,) '#### The PEM can continue!'
1064	write(,) '####'
1065	endif
1066	enddo ! big time iteration loop of the pem
1067	deallocate(vmr_co2_PCM,q_co2_PEM_phys,q_h2o_PEM_phys,delta_co2_adsorbed)
1068	deallocate(watersoil_density_PEM_avg,watersurf_density_avg)
1069	deallocate(ps_timeseries,tsoil_PEM_timeseries,watersoil_density_PEM_timeseries)
1070	deallocate(co2ice_disappeared,delta_h2o_adsorbed,delta_h2o_icetablesublim)
1071	deallocate(d_co2ice,d_co2ice_ini,d_h2oice)
1072	deallocate(is_co2ice_ini,is_co2ice_sublim_ini,is_h2oice_sublim_ini)
1073	if (layering_algo) deallocate(new_str,new_lag1,new_lag2,current1,current2)
1074	!------------------------------ END RUN --------------------------------
1075
1076	!------------------------------- OUTPUT --------------------------------
1077	!------------------------
1078	! III Output
1079	! III_a Update surface value for the PCM start files
1080	!------------------------
1081	! III_a.1 Ice update for start file
1082	write(,)
1083	write(,) '######### PEM finalization #########'
1084	write(,) '> Reconstructing perennial ice and frost for the PCM'
1085	watercap = 0.
1086	perennial_co2ice = co2_ice
1087	do ig = 1,ngrid
1088	! H2O ice metamorphism
1089	if (metam_h2oice .and. sum(qsurf(ig,igcm_h2o_ice,:)subslope_dist(ig,:)/cos(pidef_slope_mean(:)/180.)) > metam_h2oice_threshold) then
1090	h2o_ice(ig,:) = h2o_ice(ig,:) + qsurf(ig,igcm_h2o_ice,:) - metam_h2oice_threshold
1091	qsurf(ig,igcm_h2o_ice,:) = metam_h2oice_threshold
1092	endif
1093
1094	! Is H2O ice still considered as an infinite reservoir for the PCM?
1095	if (sum(h2o_ice(ig,:)subslope_dist(ig,:)/cos(pidef_slope_mean(:)/180.)) > inf_h2oice_threshold) then
1096	! There is enough ice to be considered as an infinite reservoir
1097	watercaptag(ig) = .true.
1098	else
1099	! There too little ice to be considered as an infinite reservoir so ice is transferred to the frost
1100	watercaptag(ig) = .false.
1101	qsurf(ig,igcm_h2o_ice,:) = qsurf(ig,igcm_h2o_ice,:) + h2o_ice(ig,:)
1102	h2o_ice(ig,:) = 0.
1103	endif
1104
1105	! CO2 ice metamorphism
1106	if (metam_co2ice .and. sum(qsurf(ig,igcm_co2,:)subslope_dist(ig,:)/cos(pidef_slope_mean(:)/180.)) > metam_co2ice_threshold) then
1107	perennial_co2ice(ig,:) = perennial_co2ice(ig,:) + qsurf(ig,igcm_co2,:) - metam_co2ice_threshold
1108	qsurf(ig,igcm_co2,:) = metam_co2ice_threshold
1109	endif
1110	enddo
1111
1112	! III.a.2. Tsurf update for start file
1113	write(,) '> Reconstructing the surface temperature for the PCM'
1114	tsurf = tsurf_avg + tsurf_dev
1115	deallocate(tsurf_dev)
1116
1117	! III_a.3 Tsoil update for start file
1118	if (soil_pem) then
1119	write(,) '> Reconstructing the soil temperature profile for the PCM'
1120	inertiesoil = TI_PEM(:,:nsoilmx,:)
1121	! Tsurf has evolved and so the soil temperature profile needs to be adapted to match this new value
1122	do isoil = 1,nsoilmx
1123	tsoil_dev(:,isoil,:) = tsoil_dev(:,isoil,:)*(tsurf_avg(:,:) - tsoil_PEM(:,1,:))/tsoil_dev(:,1,:)
1124	enddo
1125	tsoil = tsoil_PEM(:,1:nsoilmx,:) + tsoil_dev
1126	#ifndef CPP_STD
1127	flux_geo = fluxgeo
1128	#endif
1129	endif
1130	deallocate(tsurf_avg,tsoil_dev)
1131
1132	! III_a.4 Pressure update for start file
1133	write(,) '> Reconstructing the pressure for the PCM'
1134	allocate(ps_start(ngrid))
1135	! The pressure deviation is rescaled to avoid disproportionate oscillations in case of huge average pressure drop
1136	ps_start = ps_avg + ps_dev*ps_avg_global_new/ps_avg_global_ini
1137	deallocate(ps_avg,ps_dev)
1138
1139	! III_a.5 Tracers update for start file
1140	write(,) '> Reconstructing the tracer VMR for the PCM'
1141	allocate(zplev_start0(ngrid,nlayer + 1),zplev_new(ngrid,nlayer + 1))
1142	do l = 1,nlayer + 1
1143	zplev_start0(:,l) = ap(l) + bp(l)*ps_start0
1144	zplev_new(:,l) = ap(l) + bp(l)*ps_start
1145	enddo
1146
1147	do nnq = 1,nqtot
1148	if (noms(nnq) /= "co2") then
1149	do l = 1,llm - 1
1150	do ig = 1,ngrid
1151	q(ig,l,nnq) = q(ig,l,nnq)*(zplev_start0(ig,l) - zplev_start0(ig,l + 1))/(zplev_new(ig,l) - zplev_new(ig,l + 1))
1152	enddo
1153	q(:,llm,nnq) = q(:,llm - 1,nnq)
1154	enddo
1155	else
1156	do l = 1,llm - 1
1157	do ig = 1,ngrid
1158	q(ig,l,nnq) = q(ig,l,nnq)*(zplev_start0(ig,l) - zplev_start0(ig,l + 1))/(zplev_new(ig,l) - zplev_new(ig,l + 1)) &
1159	+ ((zplev_new(ig,l) - zplev_new(ig,l + 1)) - (zplev_start0(ig,l) - zplev_start0(ig,l + 1)))/(zplev_new(ig,l) - zplev_new(ig,l + 1))
1160	enddo
1161	q(:,llm,nnq) = q(:,llm - 1,nnq)
1162	enddo
1163	endif
1164	enddo
1165	deallocate(zplev_start0)
1166
1167	! Conserving the tracers mass for start file
1168	do nnq = 1,nqtot
1169	do ig = 1,ngrid
1170	do l = 1,llm - 1
1171	if (q(ig,l,nnq) > 1 .and. (noms(nnq) /= "dust_number") .and. (noms(nnq) /= "ccn_number") .and. (noms(nnq) /= "stormdust_number") .and. (noms(nnq) /= "topdust_number")) then
1172	extra_mass = (q(ig,l,nnq) - 1)*(zplev_new(ig,l) - zplev_new(ig,l + 1))
1173	q(ig,l,nnq) = 1.
1174	q(ig,l + 1,nnq) = q(ig,l + 1,nnq) + extra_mass*(zplev_new(ig,l + 1) - zplev_new(ig,l + 2))
1175	write(,) 'extra ',noms(nnq),extra_mass, noms(nnq) /= "dust_number",noms(nnq) /= "ccn_number"
1176	endif
1177	if (q(ig,l,nnq) < 0) q(ig,l,nnq) = 1.e-30
1178	enddo
1179	enddo
1180	enddo
1181	deallocate(zplev_new)
1182
1183	! III_a.6 Albedo update for start file
1184	write(,) '> Reconstructing the albedo for the PCM'
1185	do ig = 1,ngrid
1186	if (latitude(ig) < 0.) then
1187	icap = 2 ! Southern hemisphere
1188	else
1189	icap = 1 ! Northern hemisphere
1190	endif
1191	do islope = 1,nslope
1192	! Bare ground
1193	albedo(ig,:,islope) = albedodat(ig)
1194	emis(ig,islope) = emissiv
1195
1196	! CO2 ice/frost is treated after H20 ice/frost because it is considered dominant
1197	! H2O ice
1198	if (h2o_ice(ig,islope) > 0.) then
1199	albedo(ig,:,islope) = albedo_h2o_cap
1200	emis(ig,islope) = 1.
1201	endif
1202	! CO2 ice
1203	if (co2_ice(ig,islope) > 0.) then
1204	albedo(ig,:,islope) = albedo_perennialco2(icap)
1205	emis(ig,islope) = emisice(icap)
1206	endif
1207	! H2O frost
1208	if (qsurf(ig,igcm_h2o_ice,islope) > 0.) then
1209	albedo(ig,:,islope) = albedo_h2o_frost
1210	emis(ig,islope) = 1.
1211	endif
1212	! CO2 frost
1213	if (qsurf(ig,igcm_co2,islope) > 0.) then
1214	albedo(ig,:,islope) = albedice(icap)
1215	emis(ig,islope) = emisice(icap)
1216	endif
1217	enddo
1218	enddo
1219
1220	! III_a.7 Orbital parameters update for start file
1221	write(,) '> Setting the new orbital parameters'
1222	if (evol_orbit_pem) call recomp_orb_param(i_myear,i_myear_leg)
1223
1224	!------------------------
1225	! III Output
1226	! III_b Write "restart.nc" and "restartfi.nc"
1227	!------------------------
1228	! III_b.1 Write "restart.nc"
1229	ptimestep = iphysiq*daysec/real(day_step)/nsplit_phys ! dtphys/nsplit_phys
1230	pday = day_ini
1231	ztime_fin = time_phys
1232	#ifndef CPP_1D
1233	write(,) '> Writing "restart.nc"'
1234	! Correction on teta due to surface pressure changes
1235	allocate(pdyn(ip1jmp1))
1236	call gr_fi_dyn(1,ngrid,iip1,jjp1,ps_start0/ps_start,pdyn)
1237	do i = 1,ip1jmp1
1238	teta(i,:) = teta(i,:)pdyn(i)*kappa
1239	enddo
1240	! Correction on atmospheric pressure
1241	allocate(p(ip1jmp1,nlayer + 1))
1242	call gr_fi_dyn(1,ngrid,iip1,jjp1,ps_start,pdyn)
1243	call pression(ip1jmp1,ap,bp,pdyn,p)
1244	! Correction on the mass of atmosphere
1245	call massdair(p,masse)
1246	call dynredem0("restart.nc",day_ini,phis)
1247	call dynredem1("restart.nc",time_0,vcov,ucov,teta,q,masse,pdyn)
1248	deallocate(ap,bp,p,pdyn)
1249	#else
1250	write(,) '> Writing "restart1D.txt"'
1251	call writerestart1D('restart1D.txt',ps_start(1),tsurf(1,:),nlayer,size(tsurf,2),teta,ucov,vcov,nq,noms,qsurf(1,:,:),q)
1252	#endif
1253	deallocate(ps_start0,ps_start)
1254
1255	! III_b.2 Write the "restartfi.nc"
1256	write(,) '> Writing "restartfi.nc"'
1257	#ifndef CPP_STD
1258	call physdem0("restartfi.nc",longitude,latitude,nsoilmx,ngrid, &
1259	nlayer,nq,ptimestep,pday,0.,cell_area,albedodat, &
1260	inertiedat,def_slope,subslope_dist)
1261	call physdem1("restartfi.nc",nsoilmx,ngrid,nlayer,nq,nqsoil, &
1262	ptimestep,ztime_fin,tsurf,tsoil,inertiesoil, &
1263	albedo,emis,q2,qsurf,qsoil,tauscaling,totcloudfrac, &
1264	wstar,watercap,perennial_co2ice)
1265	#else
1266	if (allocated(noms)) deallocate(noms)
1267	deallocate(qsurf,tsurf,tsoil,emis,watercap,watercaptag,albedo,inertiesoil)
1268	call physdem0("restartfi.nc",longitude,latitude,nsoilmx,ngrid, &
1269	nlayer,nq,ptimestep,pday,time_phys,cell_area, &
1270	albedo_bareground,inertiedat,zmea,zstd,zsig,zgam,zthe)
1271	call physdem1("restartfi.nc",nsoilmx,ngrid,nlayer,nq,nqsoil, &
1272	ptimestep,ztime_fin,tsurf,tsoil,emis,q2,qsurf,qsoil, &
1273	cloudfrac,totcloudfrac,hice,rnat,pctsrf_sic,tslab, &
1274	tsea_ice,sea_ice)
1275	#endif
1276
1277	!------------------------
1278	! III Output
1279	! III_c Write the "restartpem.nc"
1280	!------------------------
1281	write(,) '> Writing "restartpem.nc"'
1282	if (layering_algo) nb_str_max = get_nb_str_max(stratif,ngrid,nslope) ! Get the maximum number of "stratum" in the stratification (layerings)
1283	call pemdem0("restartpem.nc",longitude,latitude,cell_area,ngrid,nslope,def_slope,subslope_dist)
1284	call pemdem1("restartpem.nc",i_myear,nsoilmx_PEM,ngrid,nslope,tsoil_PEM,TI_PEM,icetable_depth,icetable_thickness,ice_porefilling, &
1285	co2_adsorbed_phys,h2o_adsorbed_phys,h2o_ice,stratif)
1286
1287	call info_PEM(i_myear_leg,stopPEM,i_myear,n_myear)
1288
1289	write(,)
1290	write(,) '######### PEM finalization #########'
1291	write(*,'(a,f10.2,a)') " + The PEM leg has run for ", i_myear_leg, " Martian years."
1292	write(,'(a,f10.2,a,f10.2,a)') " + The chained simulation has run for ", i_myear, " Martian years =", i_myearconvert_years, " Earth years."
1293	write(,'(a,f10.2,a)') " + The reached date is now ", (year_bp_ini + i_myear)convert_years, " Earth years."
1294	write(,) "+ PEM: so far, so good!"
1295	write(,) '####################################'
1296
1297	if (layering_algo) then
1298	do islope = 1,nslope
1299	do i = 1,ngrid
1300	call del_layering(stratif(i,islope))
1301	enddo
1302	enddo
1303	endif
1304	deallocate(q,longitude,latitude,cell_area,tsoil_PEM)
1305	deallocate(co2_ice,h2o_ice,stratif)
1306	!----------------------------- END OUTPUT ------------------------------
1307
1308	END PROGRAM pem

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